ChIP Human - MDA-MB-231

DNA-protein interactions are studied by using ChIP. The basic steps in this technique are crosslinking, sonication, immunoprecipitation, and analysis of the immunoprecipitated DNA. During ChIP, if chromatin is under-fragmented or fragments are too large which can lead to the increased background and lower resolution. Shorter cross-linking times (5-10 min) and/or lower formaldehyde concentrations (<1%) may improve shearing efficiency. If Chromatin is over-fragmented, then optimize shearing conditions for each cell type to improve ChIP efficiency. Over-sonication of chromatin may disrupt chromatin integrity and denature antibody epitopes. If you do not see any product or very little product in the input PCR reactions, add 5–10 μg chromatin per IP.

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Found 3 matching solutions for this experiment

Upstream tips
-If any reagent has formed a precipitate, warm at 55 °C until dissolved. Allow to equilibrate to room temperature before use.
Protocol tips
-Use 1 µg of antibody per well.
-The range of cells that can be used with this kit is 0.2–2.5 x 105/well/ChIP sample. Using more than 0.5 million cells per well will increase the non-specific binding and reduce the yield and specificity of the ChIP reaction. If higher yield of ChIP DNA is desired for downstream applications (e.g. ChIP-Seq., ChIP-chip): a) DNA could be pooled by eluting consecutively (with 50 µl of elution buffer) from multiple individual ChIP reactions.
Upstream tips
-Keep away from light.
Protocol tips
-Avoid foaming or bubbles
when mixing or reconstituting components.
-Ensure plates are properly sealed or covered during incubation steps.
-An optimal chromatin amount is 5-10 µg per reaction.
-Freshly prepared chromatin can be used directly for the reaction. Frozen chromatin samples should be thawed quickly at RT and then placed on ice before use.
Upstream tips
- DO NOT cryo-preserve specimen with sucrose.
-Make fresh 1% formaldehyde before each experiment.
Protocol tips
-Keep lysate ice-cold. Sonication produces heat, which can denature the chromatin. Allow time between cycles of
sonication to prevent sample overheating.
- DNA fragments should be in 200 -1000 bps in size.
-Add 1-10 µg of immunoprecipitating antibody.
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